Fusion

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Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:query proteins and first shell of interactors

white nodes:second shell of interactors

Node Content

empty nodes:proteins of unknown 3D structure

filled nodes:some 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

Psed_3840

tRNA/rRNA methyltransferase SpoU (279 aa)

Predicted Functional Partners:

rplT

50S ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit (128 aa)

0.956

pheS

Phenylalanyl-tRNA synthetase subunit alpha (366 aa)

0.887

pheT

Phenylalanyl-tRNA synthetase subunit beta (846 aa)

0.865

rpmI

50S ribosomal protein L35 (64 aa)

0.804

Psed_3973

Ribonuclease II (474 aa)

0.767

infC

Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins (250 aa)

0.729

Psed_5370

Hypothetical protein; Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration (480 aa)

0.696

rsmH

Ribosomal RNA small subunit methyltransferase H; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA (326 aa)

0.651

Psed_6104

DNA repair protein RadA; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3’ invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA’s homology-searching function (434 aa)

a tab-delimited file describing the names, domains and annotated functions of the network proteins

Browse interactions in tabular form:

node1

node2

node1 accession

node2 accession

node1 annotation

node2 annotation

score

Psed_3840

Psed_3973

Psed_3840

Psed_3973

tRNA/rRNA methyltransferase SpoU

Ribonuclease II

0.767

Psed_3840

Psed_5370

Psed_3840

Psed_5370

tRNA/rRNA methyltransferase SpoU

Hypothetical protein; Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration

0.696

Psed_3840

Psed_6104

Psed_3840

Psed_6104

tRNA/rRNA methyltransferase SpoU

DNA repair protein RadA; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3’ invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA’s homology-searching function

0.632

Psed_3840

infC

Psed_3840

Psed_3843

tRNA/rRNA methyltransferase SpoU

Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins

0.729

Psed_3840

pheS

Psed_3840

Psed_3839

tRNA/rRNA methyltransferase SpoU

Phenylalanyl-tRNA synthetase subunit alpha

0.887

Psed_3840

pheT

Psed_3840

Psed_3838

tRNA/rRNA methyltransferase SpoU

Phenylalanyl-tRNA synthetase subunit beta

0.865

Psed_3840

rplT

Psed_3840

Psed_3841

tRNA/rRNA methyltransferase SpoU

50S ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit

0.956

Psed_3840

rpmI

Psed_3840

Psed_3842

tRNA/rRNA methyltransferase SpoU

50S ribosomal protein L35

0.804

Psed_3840

rsmH

Psed_3840

Psed_2799

tRNA/rRNA methyltransferase SpoU

Ribosomal RNA small subunit methyltransferase H; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA

0.651

Psed_3840

thrS

Psed_3840

Psed_3613

tRNA/rRNA methyltransferase SpoU

threonyl-tRNA synthetase

0.627

Psed_3973

Psed_3840

Psed_3973

Psed_3840

Ribonuclease II

tRNA/rRNA methyltransferase SpoU

0.767

Psed_3973

Psed_5370

Psed_3973

Psed_5370

Ribonuclease II

Hypothetical protein; Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration

0.412

Psed_5370

Psed_3840

Psed_5370

Psed_3840

Hypothetical protein; Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration

tRNA/rRNA methyltransferase SpoU

0.696

Psed_5370

Psed_3973

Psed_5370

Psed_3973

Hypothetical protein; Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration

Ribonuclease II

0.412

Psed_6104

Psed_3840

Psed_6104

Psed_3840

DNA repair protein RadA; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3’ invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA’s homology-searching function

tRNA/rRNA methyltransferase SpoU

0.632

infC

Psed_3840

Psed_3843

Psed_3840

Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins

tRNA/rRNA methyltransferase SpoU

0.729

infC

pheS

Psed_3843

Psed_3839

Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins

Phenylalanyl-tRNA synthetase subunit alpha

0.828

infC

pheT

Psed_3843

Psed_3838

Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins

Phenylalanyl-tRNA synthetase subunit beta

0.903

infC

rplT

Psed_3843

Psed_3841

Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins

50S ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit

0.984

infC

rpmI

Psed_3843

Psed_3842

Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins

50S ribosomal protein L35

0.939

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Network Stats

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Functional enrichments in your networkNote: some enrichments may be expected here (why?)

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Statistical background

For the above enrichment analysis, the following statistical background is assumed: